|
ACGC June 2 - June 8, 2010 |
Update |
||
|
DATE |
TIME |
TOPIC |
INSTRUCTOR |
|
|
|
|
|
|
Wednesday, June 2 |
|
|
|
|
|
3 - 5 PM |
Welcome, organization, course
overview, introductions |
Brian Fristensky |
|
|
5 - 6 PM |
Dinner |
|
|
|
6:00 - 8 PM |
Network-centric computing |
|
|
|
8 PM |
Adjourn to a local pub for informal discussion |
|
|
|
|
|
|
|
Thursday, June 3 |
|
|
|
|
|
9 - 10:30 |
UNIX (cond.); |
Brian Fristensky |
|
|
10:45 - 12:00 |
Creating sequence datasets: search by name and retrieve; search for similar sequences; extracting features |
|
|
|
12 - 13:00 |
Lunch |
|
|
|
1 - 3 PM |
Creating sequence datasets (cond.): working with large genomic fragments; creating a non-redundant dataset |
|
|
|
3:30 - 6 PM |
Multiple sequence alignment |
|
|
|
7 – 9 PM |
Open lab |
|
|
|
|
|
|
|
Friday, June 4 |
|
|
|
|
|
9 - 10:00 AM |
Genome Canada Bioinformatics Help
Desk |
David Wishart |
|
|
10:00 - 12 PM |
Perl and Gene Finding; Gene Statistics |
|
|
|
12 - 1 PM |
Lunch |
|
|
|
1 - 3 PM |
Perl and the Web |
|
|
|
3:30 - 6 PM |
Genome/Proteome/EST annotation |
|
|
|
7-9 PM |
Open lab |
|
|
|
|
|
|
|
Saturday, June 5 |
|
|
|
|
|
9 - 10:30 AM |
Guest lecture and tutorial:
|
Paul Gordon |
|
|
10:45 - 12:30 PM |
|
|
|
|
|
|
|
|
|
|
Free afternoon |
|
|
|
|
|
|
|
Sunday, June 6 |
|
|
|
|
|
9 - 10:35 AM |
Perl Unit - Regular Expressions |
Mark Wilkinson |
|
|
10:45 - 12 PM |
Regular Expressions + LWP::Simple (screen-scraping) |
|
|
|
12 - 1 PM |
Lunch |
|
|
|
1 - 3 PM |
Web Services, Taverna, and BioCatalogue |
|
|
|
3:30 - 6 PM |
BioMoby and myExperiment |
|
|
|
7-9 PM |
Open lab |
|
|
|
|
|
|
|
Monday, June 7 |
|
|
|
|
|
9 - 10:30 AM |
MAGPIE: Automated GenomeAnalysis and Annotation |
Christoph Sensen |
|
|
10:45 - 12:00 |
Annotation of Genomic DNA and ESTs with MAGPIE |
|
|
|
12 - 1 PM |
Lunch |
|
|
|
1 - 3:30 PM |
Bluejay: Customized and Selective Genome browsing High throughput genome annotation with TimeLogic and GeneMatcher hardware |
|
|
|
3:30 - 6 PM |
Osprey - high-throughput oligonucleotide design |
|
|
|
7-9 PM |
Open lab |
|
|
|
|
|
|
|
Tuesday, June 8 |
|
|
|
|
|
9 - 9:30 |
Where do we go from here? Summary of what we've learned and how to apply it when you go home. |
Brian Fristensky |
|
|
9:30 - 11:30 |
Remote use of bioinformatics systems sftp - transferring files to COE account ssh - remote terminal session at COE VNC - remote desktop session at COE; configure GNOME desktop |
|
|
|
11:30 - 12 |
Evaluation , feedback and summary |
|